catHoriz | Concatenate The Coregenes |
catVert | Concatenate All Supergenes In A Single Fasta File |
comp | Complements a nucleic acid sequence |
computePhylo | Compute Phylogeny |
download_nog_hmm | Download specific hmm datasets from EggNOG. |
extractGffTable | Extract the gff3 table and make it 'R'eadable. |
extractSeqsFromGff3 | Extract Sequences from Gff3 file |
getFfnFaa | Extract CDS gene (DNA) and protein (AA) sequences |
getIdsFromStats | Get Pfam Ids From Hmmstats output |
hmmPress | hmmPress |
hmmSearch | Run hmmsearch (HMMER 3) |
hmmStat | Compute Hmm Stats |
list_eggnogdb | List available EggNOG db datasets |
mafft | Align with MAFFT aligner |
phylen | Compute Core Genome Alignment And Phylogeny |
readDomtblout | Process hmmsearch output to make it 'R'eadable. |
setHMM | Prepare Compressed Hmm Files To Hmmsearch |
translate | Translate |
untargz | Decompress A Tar.gz File |
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